DNA Helicases and DNA Motor Proteins

DNA Helicases and DNA Motor Proteins
Author: Maria Spies
Publisher: Springer Science & Business Media
Total Pages: 308
Release: 2012-11-19
Genre: Medical
ISBN: 1461450373

Download DNA Helicases and DNA Motor Proteins Book in PDF, Epub and Kindle

In recent years, a number of groundbreaking structural and mechanistic studies deepened our understanding of helicase mechanisms and established new approaches for their analyses. Many fundamental mechanistic questions ranging from the mechanism of force generation, mechanochemical coupling to distinct mechanisms by which the same enzyme translocates on DNA removing obstacles, unwinds DNA and/or remodels nucleoprotein complexes, however, remain to be answered. It is even less understood how the helicase motors are incorporated into a wide range of genome maintenance and repair machines. The field has reached a stage when the studies of molecular mechanisms and basic biology of helicases can and shall be integrated with the studies of development, cancer and longevity. The objective of this book is to provide the first systematic overview of structure, function and regulation of DNA helicases and related molecular motors. By integrating the knowledge obtained through the diverse technical approaches ranging from single-molecule biophysics to cellular and molecular biological studies the editors aim to provide a unified view on how helicases function in the cell, are regulated in response to different cellular stresses and are integrated into large macromolecular assemblies to form a complex and adaptive living system.

DNA helicases: expression, functions and clinical implications

DNA helicases: expression, functions and clinical implications
Author: Fumiaki Uchiumi
Publisher: Frontiers Media SA
Total Pages: 80
Release: 2015-06-26
Genre: DNA helicases
ISBN: 2889195759

Download DNA helicases: expression, functions and clinical implications Book in PDF, Epub and Kindle

Helicases are the proteins that bind to double- or single-stranded DNA and/or RNA chains to unwind higher order structures, usually consuming energy from the hydrolysis of ATP molecules. The biological roles of helicases are associated with a variety of DNA and/or RNA metabolisms, including DNA-replication, -repair, -recombination, RNA processing, and transcription. Dysfunctions of helicases cause various diseases, such as xeroderma pigmentosum (XP), premature aging syndrome, cancer and immunodeficiency, in humans. Moreover, recent genetic analyses revealed that mutations in helicase-encoding genes are frequently found in patients of specific diseases. Some helicases regulate cellular senescence by controlling integrity of genomes, and others play a role in neuromuscular functions presumably by modulating processing of mRNAs. However, the molecular mechanisms of how helicases are regulated in order to maintain our health are not yet fully understood. In this research topic, we will focus on the expression and functions of helicases and their encoding genes, reviewing recent research progresses that provide new insights into development of clinical and pharmaceutical treatments targeting helicases.

Nanopore Sequencing: An Introduction

Nanopore Sequencing: An Introduction
Author: Branton Daniel
Publisher: World Scientific
Total Pages: 216
Release: 2019-04-09
Genre: Science
ISBN: 9813270624

Download Nanopore Sequencing: An Introduction Book in PDF, Epub and Kindle

This is an introductory text and laboratory manual to be used primarily in undergraduate courses. It is also useful for graduate students and research scientists who require an introduction to the theory and methods of nanopore sequencing. The book has clear explanations of the principles of this emerging technology, together with instructional material written by experts that describes how to use a MinION nanopore instrument for sequencing in research or the classroom.At Harvard University the book serves as a textbook and lab manual for a university laboratory course designed to intensify the intellectual experience of incoming undergraduates while exploring biology as a field of concentration. Nanopore sequencing is an ideal topic as a path to encourage students about the range of courses they will take in Biology by pre-emptively addressing the complaint about having to take a course in Physics or Maths while majoring in Biology. The book addresses this complaint by concretely demonstrating the range of topics — from electricity to biochemistry, protein structure, molecular engineering, and informatics — that a student will have to master in subsequent courses if he or she is to become a scientist who truly understands what his or her biology instrument is measuring when investigating biological phenomena.

Helicases from All Domains of Life

Helicases from All Domains of Life
Author: Renu Tuteja
Publisher: Academic Press
Total Pages: 200
Release: 2018-10-15
Genre: Science
ISBN: 9780128146859

Download Helicases from All Domains of Life Book in PDF, Epub and Kindle

Helicases are ubiquitous enzymes found throughout evolution. Research in the helicase field has been going on for a long time now but in recent past with the completion of so many genomes, these enzymes have been discovered in a number of organisms. But the available literature is scattered. The huge number of identified DNA and RNA helicases, along with the structural and functional differences among them, make difficult for the interested scholar to grasp a comprehensive view of the field. Helicases from all Domains of Life is the first book to compile information about helicases from many different organisms in one place. Knowledge of the functions and features of helicases across the different kingdoms of life are a valuable source of novel ideas and information The book begins with a chapter on the evolutionary history of helicases followed by three "overview" chapters: one for bacteria/archaea (which are not mentioned), one for plants/algae and one for human helicases The overview chapters are followed by specific chapters on selected helicases of great importance from a biological/applicative point of view

Single-Molecule Studies of DNA Motor Proteins Using Dual-Trap Optical Tweezers

Single-Molecule Studies of DNA Motor Proteins Using Dual-Trap Optical Tweezers
Author: Damian Jorge Deltoro
Publisher:
Total Pages: 336
Release: 2015
Genre:
ISBN:

Download Single-Molecule Studies of DNA Motor Proteins Using Dual-Trap Optical Tweezers Book in PDF, Epub and Kindle

In this dissertation we take advantage of the real-time manipulating, high force generating, and small displacement measuring abilities of dual-trap optical tweezers to investigate properties and mechanisms of motor enzymes that act on DNA, including the DNA translocation motor of bacteriophage lambda and the proposed ATP-driven annealing helicase HARP. Through a combined approach of genetic mutagenesis, biochemical analysis, and single-molecule analysis we reveal potential functional roles of the residues residing in the ATP phosphate binding motif (Walker A) of phage lambda's large terminase subunit. Direct DNA packaging measurements of phages with mutated residues within this motif reveal a range of impaired translocation phenotypes. Analysis of the slipping and pausing exhibited by mutant enzymes suggests that residues A78, R79, and V80 mediate coupling between ATP binding/hydrolysis and DNA binding/translocation while implicating residues A78, R79, V80, and G81 in proper ATP alignment for hydrolysis. The combined findings of each analysis also implicate residue R79 in ADP release and triggering ATP hydrolysis. In other studies, initial investigation into the mechanism of termination of DNA packaging in phage lambda provides evidence against a velocity-monitoring model. A higher resolution optical tweezers system was designed and constructed and a new and improved calibration method was developed and applied to initial high-resolution measurements of DNA translocation. The use of environmental and measurement noise reduction techniques and improved optical alignment procedures have yielded tweezers with approximately nanometer spatial resolution. The calibration technique, which optimizes fits of the worm-like chain model to DNA force-extension curves, yields calibration with at least a 7-fold improvement in accuracy over our prior method. The use of these tools in measuring lambda packaging yield preliminary evidence for discrete translocation steps. Lastly, tweezer measurements of HARP interactions with forked DNA provide supporting evidence that HARP is a forked-DNA binding protein that resists DNA unzipping and is not an unwinding helicase. In addition preliminary measurements suggest that this protein forcibly reanneals DNA, prevents reannealing, resists high forces, slows reannealing in an ATP dependent manner, and is recruited to bind to forked DNA with replication protein A coated single-stranded DNA.

Helicases from All Domains of Life

Helicases from All Domains of Life
Author: Renu Tuteja
Publisher: Academic Press
Total Pages: 299
Release: 2018-09-21
Genre: Science
ISBN: 0128146869

Download Helicases from All Domains of Life Book in PDF, Epub and Kindle

Helicases from All Domains of Life is the first book to compile information about helicases from many different organisms in a single volume. Research in the helicase field has been going on for a long time now, but the completion of so many genomes of these ubiquitous enzymes has made it difficult to keep up with new discoveries. As the huge number of identified DNA and RNA helicases, along with the structural and functional differences among them, make it difficult for the interested scholar to grasp a comprehensive view of the field, this book helps fill in the gaps. Presents updates on the functions and features of helicases across the different kingdoms Begins with a chapter on the evolutionary history of helicases Contains specific chapters on selected helicases of great importance from a biological/applicative point-of-view

DNA Repair Protocols

DNA Repair Protocols
Author: Daryl S. Henderson
Publisher: Springer Science & Business Media
Total Pages: 498
Release: 2008-02-03
Genre: Science
ISBN: 1592599737

Download DNA Repair Protocols Book in PDF, Epub and Kindle

The first edition of this book, published in 1999 and called DNA Repair Protocols: Eukaryotic Systems, brought together laboratory-based methods for studying DNA damage and repair in diverse eukaryotes: namely, two kinds of yeast, a nematode, a fruit fly, a toad, three different plants, and human and murine cells. This second edition of DNA Repair Protocols covers mammalian cells only and hence its new subtitle, Mammalian Systems. There are two reasons for this fresh emphasis, both of them pragmatic: to cater to the interests of what is now a largely mammalocentric DNA repair field, and to expedite editing and prod- tion of this volume. Although DNA Repair Protocols: Mammalian Systems is a smaller book than its predecessor, it actually contains a greater variety of methods. Fourteen of the book’s thirty-two chapters are entirely new and areas of redundancy present in the first edition have been eliminated here (for example, now just two chapters describe assays for nucleotide excision repair [NER], rather than seven). All eighteen returning chapters have been revised, many of them ext- sively. In order to maintain a coherent arrangement of topics, the four-part p- titioning seen in the first edition was dispensed with and chapters concerned with ionizing radiation damage and DNA strand breakage and repair were re- cated to near the front of the book. Finally, an abstract now heads each chapter.

DNA Helicases—Advances in Research and Application: 2012 Edition

DNA Helicases—Advances in Research and Application: 2012 Edition
Author:
Publisher: ScholarlyEditions
Total Pages: 23
Release: 2012-12-26
Genre: Medical
ISBN: 148163884X

Download DNA Helicases—Advances in Research and Application: 2012 Edition Book in PDF, Epub and Kindle

DNA Helicases—Advances in Research and Application: 2012 Edition is a ScholarlyPaper™ that delivers timely, authoritative, and intensively focused information about DNA Helicases in a compact format. The editors have built DNA Helicases—Advances in Research and Application: 2012 Edition on the vast information databases of ScholarlyNews.™ You can expect the information about DNA Helicases in this eBook to be deeper than what you can access anywhere else, as well as consistently reliable, authoritative, informed, and relevant. The content of DNA Helicases—Advances in Research and Application: 2012 Edition has been produced by the world’s leading scientists, engineers, analysts, research institutions, and companies. All of the content is from peer-reviewed sources, and all of it is written, assembled, and edited by the editors at ScholarlyEditions™ and available exclusively from us. You now have a source you can cite with authority, confidence, and credibility. More information is available at http://www.ScholarlyEditions.com/.

The Mechanisms of DNA Replication

The Mechanisms of DNA Replication
Author: David Stuart
Publisher: IntechOpen
Total Pages: 500
Release: 2013-02-20
Genre: Medical
ISBN: 9789535109914

Download The Mechanisms of DNA Replication Book in PDF, Epub and Kindle

DNA replication is a fundamental part of the life cycle of all organisms. Not surprisingly many aspects of this process display profound conservation across organisms in all domains of life. The chapters in this volume outline and review the current state of knowledge on several key aspects of the DNA replication process. This is a critical process in both normal growth and development and in relation to a broad variety of pathological conditions including cancer. The reader will be provided with new insights into the initiation, regulation, and progression of DNA replication as well as a collection of thought provoking questions and summaries to direct future investigations.

Molecular Biology of The Cell

Molecular Biology of The Cell
Author: Bruce Alberts
Publisher:
Total Pages: 0
Release: 2002
Genre: Cytology
ISBN: 9780815332183

Download Molecular Biology of The Cell Book in PDF, Epub and Kindle